GWB_MSPA

#!/bin/bash
# This script starts an IDL Runtime or Virtual Machine application
# Are we running headless?
if [ "${DISPLAY}" == "" ]; then headless='1'; else headless='0'; fi

# check for system or standalone mode and set default parameters
if [ "$0" == "/usr/bin/GWB_MSPA" ] &&  [ -f "/opt/GWB/tools/GWB_version.txt" ]; then
  v_installed=$(cat /opt/GWB/tools/GWB_version.txt)
  standalone=0
  topdir=/opt/GWB
elif  [ "$0" == "./GWB_MSPA" ] &&  [ -f "tools/GWB_version.txt" ]; then
  v_installed=$(cat tools/GWB_version.txt)
  standalone=1
  topdir=$PWD
  DIR_INPUT=$topdir"/input"
  DIR_OUTPUT=$topdir"/output"
else
  echo "Please run this script from /usr/bin/ or from your local GWB installation"
  exit 1
fi

# check status of GWB
checker="$topdir"/GWB_check4updates
if [ ! -f "$checker" ]; then
  echo "GWB installation corrupted, please reinstall."
  exit 1
fi
GWBstatus=$("$checker" >/dev/null; echo $?)
if [ "$GWBstatus" == "49" ]; then
    echo ""
    echo "*********************** Attention ************************"
    echo "GWB outdated. Please upgrade to the current version at:"
    echo "https://forest.jrc.ec.europa.eu/en/activities/lpa/gwb/"
    echo "*********************** Attention ************************"
    echo ""
fi

options="$*"
# if no option is provided in system-mode:
if [ "$standalone" -eq 0 ] && [  "$options" == "" ]; then
    echo "usage: GWB_MSPA --help"
    exit 1
fi

#read parameters from command line
#=================================================

for i in "$@"
do
   case $i in
       -i=*)
       DIR_INPUT="${i#*=}"
       shift
       ;;
       -o=*)
       DIR_OUTPUT="${i#*=}"
       shift
       ;;
       --nox)
       headless='1'
       echo "Note: after execution, the cmd-line message: "
       echo "'% Program caused arithmetic error: Floating illegal operand'"
       echo "can be safely ignored."
       shift
       ;;
       -v | --version)
       echo "GWB version: $v_installed"
       exit
       ;;
       -h|--help)
       echo "----------------------------------------------------------------------------------"
       echo " 1) System mode - you MUST specify custom directories:"
       echo "----------------------------------------------------------------------------------"
       echo "GWB_MSPA -i=<your dir_input> -o=<your dir_output>"
       echo "-i=<full path to directory 'input'> "
       echo "     (with your input images and parameter files)"
       echo "-o=<full path to directory 'output'> "
       echo "     (location for results, must exist and must be empty)"
       echo " "
       echo "----------------------------------------------------------------------------------"
       echo " 2) Standalone mode - fixed directory setup:"
       echo "----------------------------------------------------------------------------------"
       echo "cd into: $HOME/GWB$v_installed/GWB"
       echo "then run the command: ./GWB_MSPA"
       echo "Note: standalone mode enforces using the default standalone"
       echo "- input directory: $HOME/GWB$v_installed/GWB/input "
       echo "  (with your input images and parameter files);"
       echo "- output directory: $HOME/GWB$v_installed/GWB/output "
       echo "  (location for results, must exist and must be empty);"
       echo "----------------------------------------------------------------------------------"
       echo " "
       echo "other cmd-line options:"
       echo "--help: show cmd-line options"
       echo "--nox: enforce headless execution via xvfb-run"
       echo "--version: show GWB version number"
       exit
       ;;
       *)
       # unknown option
       echo "Error: unknown option $i"
       echo "usage: GWB_MSPA --help"
       exit
       ;;
   esac
done

# startup tests
if [ "$(getconf LONG_BIT)" != "64" ]; then
  echo 'OS is not 64bit'
  exit 1
fi

if [ "$(id -u)" -eq "0" ]; then
  echo 'Please run this script as a normal user (not root)'
  exit 1
fi

GWBCONF="${HOME}/.gwb/"
if ! mkdir -p "$GWBCONF";  then
  echo "You have no permissions to create the directory '${GWBCONF}'"
  exit 1
fi
if [ ! -w "$GWBCONF" ]; then
  echo "You have no write permissions in the directory '${GWBCONF}'"
  exit 1
fi  

# provide license info
EULAOK="$GWBCONF"EULA.txt
licfile=$topdir"/EULA_GWB.pdf"
if [ ! -e "$EULAOK" ]; then
  echo " "
  echo "   GWB (GuidosToolbox Workbench) EULA information"
  echo "================================================================"
  if [ "${headless}" == "1" ]; then
    echo "To use GWB you must accept the terms outlined in"
    echo "$licfile"
    echo "(https://ies-ows.jrc.ec.europa.eu/gtb/GWB/EULA_GWB.pdf)"
    echo " "
  else
    xdg-open "$licfile" &
  fi
  echo "Do you accept the terms of the GWB EULA?"
  echo "Please enter 'yes' or 'no' in small letters without the quotes('')"
  echo "  "
  read -r answer
  if [ "${answer}" != "yes" ]; then
    echo 'You can not use GWB because you did not agree with the GWB EULA.'
    exit
  fi
  echo "GWB EULA agreed" > "$EULAOK"
fi


#############################
### we are in standalone mode #####
#############################
# if standalone mode is active (1), reset the input/output directories to the default
if [ "$standalone" -eq 1 ]; then
  DIR_INPUT=$topdir"/input"
  DIR_OUTPUT=$topdir"/output"
  echo "*********************** Attention ************************"
  echo "Running in standalone mode implies using"
  echo "the default standalone input/output directories:"
  echo "$DIR_INPUT"
  echo "$DIR_OUTPUT"
  echo "*********************** Attention ************************"
  if [ ! -d "$DIR_INPUT" ];then
   echo "The input directory '${DIR_INPUT}' does not exist"
   exit 1
 fi
 if [ ! -d "$DIR_OUTPUT" ];then
   echo "The output directory '${DIR_OUTPUT}' does not exist"
   exit 1
 fi
 if [ ! -w "$DIR_OUTPUT" ];then
   echo "You have no write permissions in the output directory '${DIR_OUTPUT}'"
   exit 1
 fi
 # is DIR_OUTPUT empty?
 if [ "$(ls -A "$DIR_OUTPUT")" ]; then
   echo "Please empty the output directory '${DIR_OUTPUT}'"
   exit 1
 fi
fi


#############################
### we are in system mode ########
#############################
if [ "$standalone" -eq 0 ]; then
    # did we get the full-path?
    if [ "${DIR_INPUT:0:1}" != "/" ]; then
      echo "Please provide the full pathname to the input directory"
      exit 1
    fi
    if [ "${DIR_OUTPUT:0:1}" != "/" ]; then
      echo "Please provide the full pathname to the output directory"
      exit 1
    fi
    # are there any empty spaces in the directory path name?
    if [[ "$DIR_INPUT" =~ \ |\' ]]; then
      echo "empty spaces or ' in input directory pathname '${DIR_INPUT}' "
      exit 1
    fi
    if [[ "$DIR_OUTPUT" =~ \ |\' ]]; then
      echo "empty spaces or ' in output directory pathname '${DIR_OUTPUT}' "
      exit 1
    fi
    # do we have write access in $DIR_INPUT and $DIR_OUTPUT?
    if [ ! -d "$DIR_INPUT" ];then
      echo "The input directory '${DIR_INPUT}' does not exist"
      echo "Use the -i= option to specify your input directory"
      exit 1
    fi
    if [ ! -w "$DIR_INPUT" ];then
      echo "You have no write permissions in the input directory '${DIR_INPUT}'"
      echo "Use the -i= option to specify your input directory"
      exit 1
    fi
    if [ ! -d "$DIR_OUTPUT" ];then
      echo "The output directory '${DIR_OUTPUT}' does not exist"
      echo "Use the -o= option to specify your output directory"
      exit 1
    fi
    if [ ! -w "$DIR_OUTPUT" ];then
      echo "You have no write permissions in the output directory '${DIR_OUTPUT}'"
      echo "Use the -o= option to specify your output directory"
      exit 1
    fi
    if [ "$DIR_OUTPUT" == "$DIR_INPUT" ];then
      echo "input and output directory must be different"
      exit 1
    fi
    # is DIR_OUTPUT empty?
    if [ "$(ls -A "$DIR_OUTPUT")" ]; then
      echo "Please empty the output directory '${DIR_OUTPUT}'"
      exit 1
    fi
fi

rm -f "$GWBCONF"gwb_dirs.txt
# write selected settings to startup file if in system mode
if [ "$standalone" -eq 0 ]; then
  echo "$DIR_INPUT" > "$GWBCONF"gwb_dirs.txt
  echo "$DIR_OUTPUT" >> "$GWBCONF"gwb_dirs.txt
  # copy parameter files if not already there
  fparam="$DIR_INPUT"/mspa-parameters.txt
  if [ ! -e "$fparam" ]; then
   cp -f "$topdir"/input/backup/mspa-parameters.txt "$fparam"
   cp -fr "$topdir"/input/backup "$DIR_INPUT"/
   cp -f "$topdir"/input/readme.txt "$DIR_INPUT"/
   echo "***** Attention *****"
   echo "Copied missing parameter file, please verify settings in:"
   echo "$fparam"
   echo "*********************"
  fi
fi

# Specify the path to the IDL SAVE file that launches
# the application, relative to $topdir.
idlapp=$topdir/tools/GWB_MSPA.sav

# Specify the path to the top directory of the IDL
# distribution, relative to $topdir.
idl_install_dir=$topdir/tools/idl
IDL_DIR=$idl_install_dir ; export IDL_DIR

# Run the application
logram="$GWBCONF"gwb_mspa_pram.txt

# output Peak RAM usage (kb) if /usr/bin/time is available
cmd1=' '
if [[ -f "/usr/bin/time" ]]; then cmd1=(command time --output="$logram" --format="%M"); fi
if [ "${headless}" == "1" ]; then
  ${cmd1[@]} xvfb-run -a "$IDL_DIR"/bin/idl -rt="$idlapp"
else
  ${cmd1[@]}  "$IDL_DIR"/bin/idl -rt="$idlapp"
fi

# convert the peak RAM usage from kb into GB and add it to the end of the log-file
if [[ -f "/usr/bin/time" ]]; then
  logidl="$GWBCONF"gwb_mspa_log.txt
  logfile=$(cat "$logidl")
  pruse=$(awk "BEGIN {print $(cat "$logram")/1024^2}")
  echo 'Peak RAM use [GB]: '"$pruse" >> "$logfile"
fi
exit